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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ), 'gf_id' => 'HOM05D001077', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001077' ), 'data_identifier' => 'HOM05D001077', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001077', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '569', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p23500' => 'bna', 'A03p44860' => 'bna', 'A07p23630' => 'bna', 'A07p37520' => 'bna', 'A07p45130' => 'bna', 'A09p10310' => 'bna', 'A09p55740' => 'bna', 'Aa31LG4G810' => 'aar', 'Aa31LG4G9380' => 'aar', 'Aa31sc229G20' => 'aar', 'Aa31sc74G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.186' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.502' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.957' => 'aag', 'Actinidia04236' => 'ach', 'Actinidia14946' => 'ach', 'Actinidia15244' => 'ach', 'Actinidia18226' => 'ach', 'Actinidia23079' => 'ach', 'Actinidia25434' => 'ach', 'Actinidia36688' => 'ach', 'Ah.02g128060' => 'amhyb', 'Ah.03g138570' => 'amhyb', 'Ah.09g224080' => 'amhyb', 'Ah.14g078980' => 'amhyb', 'Ah.16g104770' => 'amhyb', 'AL123U10040' => 'aly', 'AL2G30690' => 'aly', 'AL2G40930' => 'aly', 'AL3G40900' => 'aly', 'Aqoxy3G00158' => 'aox', 'Aqoxy7G02460' => 'aox', 'Aqoxy7G03570' => 'aox', 'Aqoxy7G03572' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1KZ6XA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1XU02A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5D0U8Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N15IE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BJI0RA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GDDA1J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HTU94Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L2GPYS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N64Q2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TJC09S' => 'arhy', 'AT1G71110' => 'ath', 'AT1G80540' => 'ath', 'AT2G12400' => 'ath', 'AT2G25270' => 'ath', 'ATR0326G028' => 'atr', 'ATR0767G075' => 'atr', 'ATR0767G092' => 'atr', 'ATR0796G109' => 'atr', 'Atru.chr11.375' => 'acertr', 'Atru.chr5.1864' => 'acertr', 'Atru.chr7.2488' => 'acertr', 'Atru.chr7.2489' => 'acertr', 'Atru.chr7.285' => 'acertr', 'AUR62011231' => 'cqu', 'AUR62012438' => 'cqu', 'AUR62014137' => 'cqu', 'AUR62020002' => 'cqu', 'AUR62031562' => 'cqu', 'AUR62041246' => 'cqu', 'BcaB02g07149' => 'bca', 'BcaB02g11501' => 'bca', 'BcaB03g14872' => 'bca', 'BcaB04g17156' => 'bca', 'BcaB05g25261' => 'bca', 'BcaB08g34522' => 'bca', 'BcaB08g35171' => 'bca', 'BcaC01g00214' => 'bca', 'BcaC01g00215' => 'bca', 'BcaC01g00501' => 'bca', 'BcaC01g01005' => 'bca', 'BcaC01g01006' => 'bca', 'BcaC01g03132' => 'bca', 'BcaC03g15960' => 'bca', 'BcaC04g23089' => 'bca', 'BcaC07g40876' => 'bca', 'BcaC08g43412' => 'bca', 'BcaC08g43819' => 'bca', 'BcaC08g46548' => 'bca', 'BolC2t09734H' => 'bol', 'BolC2t11805H' => 'bol', 'BolC3t16471H' => 'bol', 'BolC3t17854H' => 'bol', 'BolC3t19952H' => 'bol', 'BolC3t20318H' => 'bol', 'BolC3t20319H' => 'bol', 'BolC3t20320H' => 'bol', 'BolC4t25996H' => 'bol', 'BolC6t36340H' => 'bol', 'BolC6t38093H' => 'bol', 'BolC6t39578H' => 'bol', 'BolC6t40410H' => 'bol', 'BolC8t51444H' => 'bol', 'BolC9t54119H' => 'bol', 'BraA02t04906Z' => 'bra', 'BraA02t04907Z' => 'bra', 'BraA02t07343Z' => 'bra', 'BraA03t13622Z' => 'bra', 'BraA03t14992Z' => 'bra', 'BraA05t20184Z' => 'bra', 'BraA05t20185Z' => 'bra', 'BraA07t31309Z' => 'bra', 'BraA07t32016Z' => 'bra', 'BraA08t34347Z' => 'bra', 'BraA09t36676Z' => 'bra', 'BraA09t40975Z' => 'bra', 'C02p37240' => 'bna', 'C03p41880' => 'bna', 'C03p55740' => 'bna', 'C03p76980' => 'bna', 'C03p80730' => 'bna', 'C06p12050' => 'bna', 'C06p29290' => 'bna', 'C06p45220' => 'bna', 'C06p53960' => 'bna', 'C08p38740' => 'bna', 'C09p12250' => 'bna', 'CAN.G142.11' => 'can', 'CAN.G1693.11' => 'can', 'CAN.G199.74' => 'can', 'CAN.G199.76' => 'can', 'CAN.G199.78' => 'can', 'CAN.G407.33' => 'can', 'CANSAT01G0210' => 'cansat', 'CANSAT11G2366' => 'cansat', 'CANSAT25G2844' => 'cansat', 'CANSAT56G1656' => 'cansat', 'CARHR064400' => 'chi', 'CARHR074060' => 'chi', 'CARHR105020' => 'chi', 'CARHR116270' => 'chi', 'Carub.0002s1793' => 'cru', 'Carub.0002s2702' => 'cru', 'Carub.0003s2775' => 'cru', 'Carub.0004s0489' => 'cru', 'Ca_02891_v3' => 'car', 'Ca_11100_v3' => 'car', 'Ca_15758_v3' => 'car', 'CBR_g29327' => 'cbr', 'CBR_g39146' => 'cbr', 'CBR_g4829' => 'cbr', 'Cc04_g04750' => 'ccan', 'Cc06_g07580' => 'ccan', 'Cc08_g00290' => 'ccan', 'Cc11_g09040' => 'ccan', 'CDE02G0030' => 'cde', 'CDE02G0331' => 'cde', 'CDE02G2534' => 'cde', 'CDE05G0115' => 'cde', 'CDE07G0199' => 'cde', 'Cfa008578' => 'cfa', 'Cfa013114' => 'cfa', 'Cfa020908' => 'cfa', 'Ciclev10007910m.g' => 'ccl', 'Ciclev10007959m.g' => 'ccl', 'Ciclev10014762m.g' => 'ccl', 'Ciclev10026988m.g' => 'ccl', 'CiPaw.05G247700' => 'cil', 'CiPaw.06G013600' => 'cil', 'CiPaw.08G008900' => 'cil', 'CiPaw.15G184000' => 'cil', 'CiPaw.16G023900' => 'cil', 'CiPaw.16G118600' => 'cil', 'ClCG02G017170' => 'cla', 'ClCG05G016660' => 'cla', 'ClCG05G022220' => 'cla', 'ClCG06G011920' => 'cla', 'COL.COLO4_11837' => 'col', 'COL.COLO4_18901' => 'col', 'COL.COLO4_20449' => 'col', 'COL.COLO4_24140' => 'col', 'Cpa.g.sc1417.1' => 'cpa', 'Cpa.g.sc187.16' => 'cpa', 'Cpa.g.sc46.73' => 'cpa', 'Cpa.g.sc65.112' => 'cpa', 'CsaV3_1G028390' => 'csa', 'CsaV3_2G003610' => 'csa', 'CsaV3_4G036970' => 'csa', 'CsaV3_5G034900' => 'csa', 'CSS0007654' => 'camsi', 'CSS0016048' => 'camsi', 'CSS0018762' => 'camsi', 'CSS0019236' => 'camsi', 'CSS0020317' => 'camsi', 'CSS0020560' => 'camsi', 'CSS0022269' => 'camsi', 'CSS0022650' => 'camsi', 'CSS0026919' => 'camsi', 'CSS0030718' => 'camsi', 'CSS0031226' => 'camsi', 'CSS0034376' => 'camsi', 'CSS0044913' => 'camsi', 'CSS0045210' => 'camsi', 'CSS0048053' => 'camsi', 'DCAR_005470' => 'dca', 'DCAR_009349' => 'dca', 'DCAR_025533' => 'dca', 'DCAR_026763' => 'dca', 'DCAR_030207' => 'dca', 'Dinv05887' => 'din', 'Dinv15877' => 'din', 'Dinv16198' => 'din', 'Dinv18183' => 'din', 'Dinv23320' => 'din', 'Dinv38150' => 'din', 'Duzib150G0270' => 'dzi', 'Duzib150G1197' => 'dzi', 'Duzib150G1382' => 'dzi', 'Duzib160G0638' => 'dzi', 'Duzib160G0661' => 'dzi', 'Duzib168G0096' => 'dzi', 'Duzib168G0212' => 'dzi', 'Duzib168G0436' => 'dzi', 'Duzib187G1865' => 'dzi', 'Duzib235G0337' => 'dzi', 'Duzib251G0951' => 'dzi', 'Duzib268G0608' => 'dzi', 'ECA232G1528' => 'eca', 'ECA233G3285' => 'eca', 'ECA234G3611' => 'eca', 'ECA246G0511' => 'eca', 'ECA246G4396' => 'eca', 'ECA246G4688' => 'eca', 'EL10Ac2g04162' => 'bvu', 'EL10Ac6g14246' => 'bvu', 'EL10Ac8g18792' => 'bvu', 'Eucgr.B02889' => 'egr', 'Eucgr.C00451' => 'egr', 'Eucgr.C02731' => 'egr', 'Eucgr.C02732' => 'egr', 'Eucgr.F03932' => 'egr', 'Eucgr.L01040' => 'egr', 'FAN07G0719' => 'fan', 'FAN12G2776' => 'fan', 'FAN19G0001' => 'fan', 'FAN20G0753' => 'fan', 'FAN22G1223' => 'fan', 'FAN23G2584' => 'fan', 'FAN23G2978' => 'fan', 'FAN26G0823' => 'fan', 'FAN28G0273' => 'fan', 'FAN28G1263' => 'fan', 'FvH4_1g01880' => 'fve', 'FvH4_1g01910' => 'fve', 'FvH4_2g28370' => 'fve', 'FvH4_4g32140' => 'fve', 'Glyma.04G064500' => 'gma', 'Glyma.06G065800' => 'gma', 'Glyma.08G215000' => 'gma', 'Glyma.08G359500' => 'gma', 'Glyma.09G093400' => 'gma', 'Glyma.10G265600' => 'gma', 'Glyma.13G164700' => 'gma', 'Glyma.15G199800' => 'gma', 'Glyma.17G106366' => 'gma', 'Glyma.17G106432' => 'gma', 'Glyma.18G177100' => 'gma', 'Glyma.20G125000' => 'gma', 'Gohir.A02G123300' => 'ghi', 'Gohir.A03G123300' => 'ghi', 'Gohir.A05G056800' => 'ghi', 'Gohir.A06G051450' => 'ghi', 'Gohir.A08G091700' => 'ghi', 'Gohir.A10G072500' => 'ghi', 'Gohir.A12G149800' => 'ghi', 'Gohir.D02G146000' => 'ghi', 'Gohir.D03G060603' => 'ghi', 'Gohir.D03G113800' => 'ghi', 'Gohir.D05G058900' => 'ghi', 'Gohir.D06G050600' => 'ghi', 'Gohir.D08G102200' => 'ghi', 'Gohir.D10G078600' => 'ghi', 'Gohir.D11G192050' => 'ghi', 'Gorai.002G056100' => 'gra', 'Gorai.003G120000' => 'gra', 'Gorai.004G110200' => 'gra', 'Gorai.005G163400' => 'gra', 'Gorai.007G205000' => 'gra', 'Gorai.008G166100' => 'gra', 'Gorai.009G060000' => 'gra', 'Gorai.010G057400' => 'gra', 'Gorai.011G085400' => 'gra', 'GSVIVG01011785001' => 'vvi', 'GSVIVG01012867001' => 'vvi', 'GSVIVG01017509001' => 'vvi', 'GSVIVG01035930001' => 'vvi', 'HanXRQChr02g0050271' => 'han', 'HanXRQChr02g0050281' => 'han', 'HanXRQChr02g0054921' => 'han', 'HanXRQChr05g0157351' => 'han', 'HanXRQChr12g0377701' => 'han', 'HanXRQChr13g0403191' => 'han', 'HanXRQChr15g0477331' => 'han', 'HanXRQChr15g0488561' => 'han', 'HanXRQChr16g0499841' => 'han', 'HanXRQChr16g0499851' => 'han', 'HanXRQChr16g0511451' => 'han', 'Haze_11035' => 'cav', 'Haze_16622' => 'cav', 'Haze_19339' => 'cav', 'Haze_21476' => 'cav', 'Hma1.2p1_0039F.1_g024855' => 'hma', 'Hma1.2p1_0109F.1_g052240' => 'hma', 'Hma1.2p1_0114F.1_g055210' => 'hma', 'Hma1.2p1_0215F.1_g090863' => 'hma', 'Hma1.2p1_0228F.1_g096510' => 'hma', 'Hma1.2p1_0251F.1_g102670' => 'hma', 'Hma1.2p1_0620F.1_g190512' => 'hma', 'Hma1.2p1_0620F.1_g190513' => 'hma', 'Hma1.2p1_0620F.1_g190517' => 'hma', 'Hma1.2p1_0620F.1_g190518' => 'hma', 'Hma1.2p1_0949F.1_g240670' => 'hma', 'Hma1.2p1_1624F.1_g294230' => 'hma', 'Hma1.2p1_4030F.1_g338163' => 'hma', 'Hma1.2p1_4030F.1_g338166' => 'hma', 'HPP92_004838' => 'vpl', 'HPP92_005344' => 'vpl', 'HPP92_010550' => 'vpl', 'Hund04448' => 'sun', 'Hund21597' => 'sun', 'Hund24994' => 'sun', 'Lalb_Chr02g0145541' => 'lal', 'Lalb_Chr08g0233611' => 'lal', 'Lalb_Chr10g0096301' => 'lal', 'Lalb_Chr11g0073061' => 'lal', 'Lalb_Chr12g0198471' => 'lal', 'Lalb_Chr23g0268391' => 'lal', 'Lj1g0001776' => 'lja', 'Lj2g0027166' => 'lja', 'Lj3A875T60' => 'lonja', 'Lj3g0015585' => 'lja', 'Lj4g0022674' => 'lja', 'Lj5C77T12' => 'lonja', 'Lj5g0015826' => 'lja', 'Lj5g0016200' => 'lja', 'Lj6C749T1' => 'lonja', 'Lj6g0016857' => 'lja', 'Lj7A440G33' => 'lonja', 'Lj7C727T9' => 'lonja', 'Lj8C730T2' => 'lonja', 'Lj8C731T2' => 'lonja', 'Lsat_1_v5_gn_3_54221' => 'lsa', 'Lsat_1_v5_gn_4_15400' => 'lsa', 'Lsat_1_v5_gn_4_87860' => 'lsa', 'Lsat_1_v5_gn_5_7920' => 'lsa', 'Lsat_1_v5_gn_6_115560' => 'lsa', 'Lsat_1_v5_gn_6_20421' => 'lsa', 'Manes.04G107101' => 'mes', 'Manes.04G107200' => 'mes', 'Manes.06G043100' => 'mes', 'Manes.06G061800' => 'mes', 'Manes.14G120700' => 'mes', 'Manes.16G125400' => 'mes', 'Mapoly0006s0022' => 'mpo', 'Mapoly0012s0034' => 'mpo', 'Mapoly0035s0111' => 'mpo', 'MBI10_g37693_MAGBIO' => 'mbi', 'MBI14_g06397_MAGBIO' => 'mbi', 'MCO07G700' => 'mco', 'MD02G1016700' => 'mdo', 'MD02G1016800' => 'mdo', 'MD02G1017200' => 'mdo', 'MD13G1028100' => 'mdo', 'MD15G1129700' => 'mdo', 'MD15G1161200' => 'mdo', 'MD15G1161600' => 'mdo', 'MD16G1031000' => 'mdo', 'Medtr1g108460' => 'mtr', 'Medtr2g450550' => 'mtr', 'Medtr3g106510' => 'mtr', 'Medtr4g116290' => 'mtr', 'MELO3C004435.2' => 'cme', 'MELO3C010273.2' => 'cme', 'MELO3C012300.2' => 'cme', 'MELO3C016996.2' => 'cme', 'Migut.A00012' => 'egut', 'Migut.E01817' => 'egut', 'Migut.I00733' => 'egut', 'Migut.L00758' => 'egut', 'MSTRG.11164' => 'ama', 'MSTRG.11601' => 'ama', 'MSTRG.1731' => 'ama', 'MSTRG.2190' => 'ama', 'MSTRG.22770' => 'ama', 'MSTRG.22771' => 'ama', 'MSTRG.22773' => 'ama', 'MSTRG.26026' => 'ama', 'MSTRG.885' => 'ama', 'Nitab4.5_0000857g0040' => 'nta', 'Nitab4.5_0002322g0140' => 'nta', 'Nitab4.5_0002503g0020' => 'nta', 'Nitab4.5_0004092g0010' => 'nta', 'Nitab4.5_0006182g0010' => 'nta', 'Nitab4.5_0006513g0020' => 'nta', 'Nitab4.5_0006648g0030' => 'nta', 'Nitab4.5_0007600g0020' => 'nta', 'Nn2g12216' => 'nnu', 'Nn3g18036' => 'nnu', 'Nn3g18037' => 'nnu', 'Nn8g39674' => 'nnu', 'Oeu004306.1' => 'oeu', 'Oeu026256.3' => 'oeu', 'Oeu033350.1' => 'oeu', 'Oeu036213.1' => 'oeu', 'Oeu044334.4' => 'oeu', 'Oeu053101.1' => 'oeu', 'Os01g0121300' => 'osa', 'Os02g0183500' => 'osa', 'Os02g0799300' => 'osa', 'Os04g0644000' => 'osa', 'Os06g0645600' => 'osa', 'Peaxi162Scf00116g00117' => 'pax', 'Peaxi162Scf00205g00616' => 'pax', 'Peaxi162Scf00332g00025' => 'pax', 'Peaxi162Scf00430g00116' => 'pax', 'PGR044G1389' => 'pgr', 'PGR102G2066' => 'pgr', 'PGR102G3120' => 'pgr', 'PGR142G1921' => 'pgr', 'PGSC0003DMG400014134' => 'stu', 'PGSC0003DMG400015625' => 'stu', 'PGSC0003DMG400026099' => 'stu', 'PGSC0003DMG400030510' => 'stu', 'Phvul.003G029400' => 'pvu', 'Phvul.003G173200' => 'pvu', 'Phvul.007G036200' => 'pvu', 'Phvul.009G090800' => 'pvu', 'Phvul.009G210800' => 'pvu', 'Phvul.010G158000' => 'pvu', 'Potri.006G060600' => 'ptr', 'Potri.006G258700' => 'ptr', 'Potri.010G115500' => 'ptr', 'Potri.018G023200' => 'ptr', 'Potri.018G120200' => 'ptr', 'Pp3c10_8020' => 'ppa', 'Pp3c14_10148' => 'ppa', 'Pp3c18_2070' => 'ppa', 'Pp3c19_10280' => 'ppa', 'Pp3c21_21460' => 'ppa', 'Pp3c2_14290' => 'ppa', 'Pp3c2_3520' => 'ppa', 'Pp3c7_12200' => 'ppa', 'Prupe.1G322100' => 'ppe', 'Prupe.1G485200' => 'ppe', 'Prupe.7G256400' => 'ppe', 'Prupe.7G256700' => 'ppe', 'Psat0s1918g0040' => 'psa', 'Psat0s230g0040' => 'psa', 'Psat1g102680' => 'psa', 'Psat1g102720' => 'psa', 'Psat5g030000' => 'psa', 'Psat5g030680' => 'psa', 'Psat6g221880' => 'psa', 'PSO017G1840' => 'pso', 'PSO063G0816' => 'pso', 'PSO063G6296' => 'pso', 'PSO170G0711' => 'pso', 'PSO782G4921' => 'pso', 'PSO832G3478' => 'pso', 'QL01p002282' => 'qlo', 'QL02p020683' => 'qlo', 'QL02p090954' => 'qlo', 'QL05p033225' => 'qlo', 'QL05p033240' => 'qlo', 'RcHm_v2.0_Chr1g0337751' => 'rch', 'RcHm_v2.0_Chr1g0337811' => 'rch', 'RcHm_v2.0_Chr1g0337821' => 'rch', 'RcHm_v2.0_Chr2g0086851' => 'rch', 'RcHm_v2.0_Chr2g0086861' => 'rch', 'RcHm_v2.0_Chr2g0086921' => 'rch', 'RcHm_v2.0_Chr4g0440851' => 'rch', 'RcHm_v2.0_Chr5g0041951' => 'rch', 'RcHm_v2.0_Chr6g0297331' => 'rch', 'Rhsim07G0161400' => 'rsi', 'Rhsim08G0209600' => 'rsi', 'Rhsim09G0014400' => 'rsi', 'Rhsim09G0095400' => 'rsi', 'Rhsim09G0101000' => 'rsi', 'Sabra06G0043600' => 'sbr', 'Sabra06G0202200' => 'sbr', 'Sabra10G0085400' => 'sbr', 'Sabra10G0087100' => 'sbr', 'Sabra18G0098300' => 'sbr', 'Sabra18G0100300' => 'sbr', 'SalBow4G0581' => 'sbo', 'SalBow7G1983' => 'sbo', 'Sc04g0005690' => 'sci', 'Sc08g0006000' => 'sci', 'Sc09g0010350' => 'sci', 'Sed0008829' => 'sed', 'Sed0012167' => 'sed', 'Sed0012611' => 'sed', 'Sed0013347' => 'sed', 'Sed0015111' => 'sed', 'Sed0019235' => 'sed', 'SEGI_11414' => 'sgi', 'SEGI_13936' => 'sgi', 'SEGI_33845' => 'sgi', 'SGA_v2.0_scaffold14G06931' => 'sas', 'SGA_v2.0_scaffold37G14739' => 'sas', 'SGA_v2.0_scaffold37G14740' => 'sas', 'SGA_v2.0_scaffold37G14741' => 'sas', 'SHI03266' => 'shi', 'SHI04805' => 'shi', 'SHI18511' => 'shi', 'SMO137G0176' => 'smo', 'SMO339G0003' => 'smo', 'Solyc03g117280.4' => 'sly', 'Solyc05g008380.4' => 'sly', 'Solyc06g065870.3' => 'sly', 'Solyc08g041710.3' => 'sly', 'Sopen03g036170' => 'spe', 'Sopen05g004210' => 'spe', 'Sopen06g024350' => 'spe', 'Sopen08g011780' => 'spe', 'Sp3g26360' => 'spa', 'Sp4g04440' => 'spa', 'Sp5g26280' => 'spa', 'Sp5g35250' => 'spa', 'TAR383G0689' => 'tar', 'TAR622G0584' => 'tar', 'TAR622G1235' => 'tar', 'TAR625G0835' => 'tar', 'TAR636G0246' => 'tar', 'THA.LOC104803645' => 'tha', 'THA.LOC104808951' => 'tha', 'THA.LOC104812456' => 'tha', 'THA.LOC104824728' => 'tha', 'THA.LOC104826563' => 'tha', 'Thecc.02G278200' => 'tca', 'Thecc.06G034800' => 'tca', 'Thecc.06G034900' => 'tca', 'Thecc.09G020300' => 'tca', 'Thecc.09G139100' => 'tca', 'Thhalv10000733m.g' => 'esa', 'Thhalv10018376m.g' => 'esa', 'Thhalv10018709m.g' => 'esa', 'Thhalv10022640m.g' => 'esa', 'TPR.G28511' => 'tpr', 'TPR.G40191' => 'tpr', 'TPR.G4108' => 'tpr', 'TPR.G4937' => 'tpr', 'TWI12G0476' => 'twi', 'TWI12G0505' => 'twi', 'TWI18G0581' => 'twi', 'TWI31G1442' => 'twi', 'TWI34G1714' => 'twi', 'TWI63G0108' => 'twi', 'TWI63G0230' => 'twi', 'unitig_699.g19083' => 'ugi', 'vmacro00662' => 'vma', 'vmacro05158' => 'vma', 'vmacro10625' => 'vma', 'vmacro19029' => 'vma', 'VMungo0292G0001' => 'vmu', 'VMungo0331G1969' => 'vmu', 'VMungo0720G1078' => 'vmu', 'VMungo1215G1124' => 'vmu', 'VMungo1215G2499' => 'vmu', 'VMungo1215G3120' => 'vmu', 'VMungo1309G1027' => 'vmu', 'VMungo1309G3163' => 'vmu', 'Zm00001eb125860' => 'zma', 'Zm00001eb234350' => 'zma', 'Zm00001eb258050' => 'zma', 'Zm00001eb431980' => 'zma' ) $gf_id = 'HOM05D001077' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001077' ) $data_identifier = 'HOM05D001077' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 10, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 19, 'bol' => (int) 15, 'bra' => (int) 12, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 3, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 15, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 12, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 15, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 14, 'vpl' => (int) 3, 'sun' => (int) 3, 'lal' => (int) 6, 'lja' => (int) 7, 'lonja' => (int) 7, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 3, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 9, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 8, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 9, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 3, 'sas' => (int) 4, 'shi' => (int) 3, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 5, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 8, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb431980' $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